• English
    • français
  • Help
  •  | 
  • Contact
  •  | 
  • About
  •  | 
  • Login
  • HAL portal
  •  | 
  • Pages Pro
  • EN
  •  / 
  • FR
View Item 
  •   LillOA Home
  • Liste des unités
  • Centre de Recherche en Informatique, Signal et Automatique de Lille (CRIStAL) - UMR 9189
  • View Item
  •   LillOA Home
  • Liste des unités
  • Centre de Recherche en Informatique, Signal et Automatique de Lille (CRIStAL) - UMR 9189
  • View Item
JavaScript is disabled for your browser. Some features of this site may not work without it.

STRONG: metagenomics strain resolution on ...
  • BibTeX
  • CSV
  • Excel
  • RIS

Document type :
Article dans une revue scientifique
DOI :
10.1186/s13059-021-02419-7
Title :
STRONG: metagenomics strain resolution on assembly graphs
Author(s) :
Limasset, Antoine [Auteur] refId
Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 [CRIStAL]

Quince, Christopher [Auteur]
Nurk, Sergey [Auteur]
Raguideau, Sebastien [Auteur]
James, Robert [Auteur]
Soyer, Orkun [Auteur]
Summers, J. Kimberly [Auteur]
Eren, A. Murat [Auteur]
Chikhi, Rayan [Auteur] refId
Darling, Aaron [Auteur]
Journal title :
Genome Biology
Publisher :
BioMed Central
Publication date :
2021-06-29
ISSN :
1465-6906
HAL domain(s) :
Informatique [cs]/Bio-informatique [q-bio.QM]
English abstract : [en]
Abstract We introduce STrain Resolution ON assembly Graphs (STRONG), which identifies strains de novo, from multiple metagenome samples. STRONG performs coassembly, and binning into metagenome assembled genomes (MAGs), and ...
Show more >
Abstract We introduce STrain Resolution ON assembly Graphs (STRONG), which identifies strains de novo, from multiple metagenome samples. STRONG performs coassembly, and binning into metagenome assembled genomes (MAGs), and stores the coassembly graph prior to variant simplification. This enables the subgraphs and their unitig per-sample coverages, for individual single-copy core genes (SCGs) in each MAG, to be extracted. A Bayesian algorithm, BayesPaths, determines the number of strains present, their haplotypes or sequences on the SCGs, and abundances. STRONG is validated using synthetic communities and for a real anaerobic digestor time series generates haplotypes that match those observed from long Nanopore reads.Show less >
Language :
Anglais
Peer reviewed article :
Oui
Audience :
Internationale
Popular science :
Non
Collections :
  • Centre de Recherche en Informatique, Signal et Automatique de Lille (CRIStAL) - UMR 9189
Source :
Harvested from HAL
Files
Thumbnail
  • https://genomebiology.biomedcentral.com/track/pdf/10.1186/s13059-021-02419-7
  • Open access
  • Access the document
Université de Lille

Mentions légales
Université de Lille © 2017